Variant report

Variant	rs1479879
Chromosome Location	chr3:140058635-140058636
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:140058084..140060936-chr3:140070317..140072868,2	K562	blood:
2	chr3:140058099..140061175-chr3:140062263..140065784,3	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1006877	0.81[CEU][hapmap];0.85[EUR][1000 genomes]
rs1006878	0.81[CEU][hapmap];0.86[EUR][1000 genomes]
rs1038157	0.93[YRI][hapmap];0.82[AFR][1000 genomes]
rs1154765	0.88[EUR][1000 genomes]
rs1154766	0.85[CEU][hapmap];0.89[EUR][1000 genomes]
rs11706485	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12636954	1.00[JPT][hapmap]
rs13319247	0.86[CHB][hapmap]
rs1479878	0.90[YRI][hapmap];0.85[AFR][1000 genomes]
rs1564395	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1564397	0.96[CEU][hapmap];0.86[CHB][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs16850133	1.00[JPT][hapmap]
rs17345403	0.86[EUR][1000 genomes]
rs1871497	0.86[CEU][hapmap];0.89[EUR][1000 genomes]
rs3925729	0.86[ASN][1000 genomes]
rs3947733	0.80[CEU][hapmap];0.85[EUR][1000 genomes]
rs4142786	1.00[JPT][hapmap]
rs6414346	0.87[EUR][1000 genomes]
rs6762256	0.96[CEU][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6766533	1.00[CEU][hapmap];0.86[CHB][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6766541	0.87[EUR][1000 genomes]
rs6786128	0.85[EUR][1000 genomes]
rs6786368	1.00[JPT][hapmap]
rs6797652	0.85[EUR][1000 genomes]
rs6810326	0.86[EUR][1000 genomes]
rs7610342	1.00[JPT][hapmap]
rs7610675	1.00[CEU][hapmap];0.86[CHB][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7611205	0.81[CEU][hapmap];0.84[EUR][1000 genomes]
rs7630996	0.81[CEU][hapmap];0.85[EUR][1000 genomes]
rs7631243	0.84[EUR][1000 genomes]
rs7638929	1.00[JPT][hapmap]
rs7653676	0.85[CEU][hapmap];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9832534	0.81[CEU][hapmap];0.85[EUR][1000 genomes]
rs9837940	0.85[EUR][1000 genomes]
rs9871764	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs987486	0.96[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757891	chr3:139925764-140524730	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	esv2759181	chr3:139925764-140524730	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv829740	chr3:139925767-140106169	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv527831	chr3:139932966-140533823	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv460867	chr3:140007294-140180563	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv591861	chr3:140007294-140180563	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	esv34489	chr3:140009020-140469302	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	esv2757012	chr3:140009220-140460228	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	nsv818169	chr3:140014763-140182046	Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	nsv1001430	chr3:140016999-140186498	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
11	nsv998953	chr3:140017168-140186984	Enhancers Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	nsv536731	chr3:140017168-140186984	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
13	nsv829741	chr3:140021063-140183294	Enhancers Genic enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
14	nsv1004500	chr3:140021594-140189148	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:140043000-140068600	Weak transcription	HSMMtube	muscle
2	chr3:140050600-140060000	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr3:140052000-140059800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr3:140052400-140061600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr3:140055800-140060200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr3:140058000-140060000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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